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    pcm pacman [ Drosophila melanogaster (fruit fly) ]

    Gene ID: 32935, updated on 9-Dec-2024

    Summary

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    Official Symbol
    pcmprovided by FlyBase
    Official Full Name
    pacmanprovided by FlyBase
    Primary source
    FLYBASE:FBgn0020261
    Locus tag
    Dmel_CG3291
    See related
    AllianceGenome:FB:FBgn0020261
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Drosophila melanogaster
    Lineage
    Eukaryota; Metazoa; Ecdysozoa; Arthropoda; Hexapoda; Insecta; Pterygota; Neoptera; Endopterygota; Diptera; Brachycera; Muscomorpha; Ephydroidea; Drosophilidae; Drosophila; Sophophora
    Also known as
    CG3291; Dmel\CG3291; DmXrn1; dXRN1; Pcm; PCM; Xrn1; XRN1; XRN1/pcm; Xrn1p
    Summary
    Predicted to enable 5'-3' RNA exonuclease activity and RNA binding activity. Involved in several processes, including imaginal disc morphogenesis; negative regulation of gene expression; and positive regulation of imaginal disc growth. Located in P-body; neuronal cell body; and neuronal ribonucleoprotein granule. Is active in P granule. Is expressed in several structures, including embryonic head; germ band; germinal proliferation center; germline cell; and wing disc. Human ortholog(s) of this gene implicated in Alzheimer's disease. Orthologous to human XRN1 (5'-3' exoribonuclease 1). [provided by Alliance of Genome Resources, Dec 2024]
    Orthologs
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    Genomic context

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    See pcm in Genome Data Viewer
    Location:
    18C7-18C7; 1-62 cM
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    Release 6.54 current Release 6 plus ISO1 MT (GCF_000001215.4) X NC_004354.4 (19485759..19492011, complement)
    Release 5.57 previous assembly Release 5 (GCF_000001215.2) X NC_004354.3 (19379792..19386044, complement)

    Chromosome X - NC_004354.4Genomic Context describing neighboring genes Neighboring gene mitochondrial ribosomal protein S14 Neighboring gene N(alpha)-acetyltransferase 15/16 Neighboring gene long non-coding RNA:CR43260 Neighboring gene NADH dehydrogenase (ubiquinone) 18 kDa subunit Neighboring gene uncharacterized protein Neighboring gene kish

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Coupled 5' nucleotide recognition and processivity in Xrn1-mediated mRNA decay. Jinek M, et al. Mol Cell, 2011 Mar 4. PMID 21362555, Free PMC Article
    2. Identification and developmental expression of a 5'-3' exoribonuclease from Drosophila melanogaster. Till DD, et al. Mech Dev, 1998 Dec. PMID 10349620
    3. Cytoplasmically localized tRNA-derived fragments inhibit translation in Drosophila S2 cells. Hamid SM, et al. Turk J Biol, 2022. PMID 37529257, Free PMC Article
    4. XRN 5'→3' exoribonucleases: structure, mechanisms and functions. Nagarajan VK, et al. Biochim Biophys Acta, 2013 Jun-Jul. PMID 23517755, Free PMC Article
    5. The 5'-3' exoribonuclease Pacman is required for normal male fertility and is dynamically localized in cytoplasmic particles in Drosophila testis cells. Zabolotskaya MV, et al. Biochem J, 2008 Dec 15. PMID 18652574

    See all (87) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Drosophila Mbf1 associates with E(z) mRNA and protects it from degradation by the exoribonuclease Pacman (Pcm), thereby ensuring Polycomb silencing.
      Title: Mbf1 ensures Polycomb silencing by protecting E(z) mRNA from degradation by Pacman.
    2. data suggest that Pacman controls growth of imaginal discs via control of protein synthesis and regulation of autophagy
      Title: The 5'-3' exoribonuclease Pacman (Xrn1) regulates expression of the heat shock protein Hsp67Bc and the microRNA miR-277-3p in Drosophila wing imaginal discs.
    3. analysis of coupled 5' nucleotide recognition and processivity in Xrn1-mediated mRNA decay
      Title: Coupled 5' nucleotide recognition and processivity in Xrn1-mediated mRNA decay.
    4. Results identify KLP59D as a novel and important regulator of spindle microtubule dynamics and chromosome motility, via Pacman and Flux, in Drosophila somatic cells.
      Title: The Drosophila kinesin-13, KLP59D, impacts Pacman- and Flux-based chromosome movement.
    5. Results show that Pacman, the Drosophila homologue of Xrn1, is localized in cytoplasmic particles in Drosophila testis cells and is required for normal spermatogenesis.
      Title: The 5'-3' exoribonuclease Pacman is required for normal male fertility and is dynamically localized in cytoplasmic particles in Drosophila testis cells.
    6. Pacman genetically interacts with puckered, a phosphatase that negatively regulates the JNK signalling pathway.
      Title: The 5'-3' exoribonuclease pacman is required for epithelial sheet sealing in Drosophila and genetically interacts with the phosphatase puckered.
    7. Nonsense-mediated messenger RNA decay is initiated by endonucleolytic cleavage: the resulting 5' fragment is rapidly degraded by exonucleolytic digestion by the exosome, whereas the 3' fragment is degraded by XRN1
      Title: Nonsense-mediated messenger RNA decay is initiated by endonucleolytic cleavage in Drosophila.
    Submit: New GeneRIF Correction

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Homology

    Gene Ontology Provided by FlyBase

    Function Evidence Code Pubs
    enables 5'-3' RNA exonuclease activity IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables 5'-3' exonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables RNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables nucleic acid binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    Process Evidence Code Pubs
    involved_in dorsal closure IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in imaginal disc fusion, thorax closure IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in imaginal disc-derived wing morphogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in mRNA catabolic process IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in negative regulation of apoptotic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in negative regulation of gene expression IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in nuclear-transcribed mRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in nuclear-transcribed mRNA catabolic process IEA
    Inferred from Electronic Annotation
    more info
    		  
    involved_in nuclear-transcribed mRNA catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in nuclear-transcribed mRNA catabolic process, non-stop decay IGI
    Inferred from Genetic Interaction
    more info
    		 PubMed 
    involved_in nuclear-transcribed mRNA catabolic process, non-stop decay IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in nuclear-transcribed mRNA catabolic process, nonsense-mediated decay IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in positive regulation of imaginal disc growth IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in rRNA catabolic process IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in regulation of cytoplasmic mRNA processing body assembly IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulatory ncRNA-mediated post-transcriptional gene silencing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in spermatogenesis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in wound healing IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    is_active_in P granule IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in P-body IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in neuronal cell body IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in neuronal ribonucleoprotein granule IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  

    General protein information

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    Preferred Names
    pacman
    Names
    CG3291-PA
    CG3291-PB
    pcm-PA
    pcm-PB
    ribonuclease 1
    NP_001162796.1
    NP_523408.2

    NCBI Reference Sequences (RefSeq)

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    Genome Annotation

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference assembly

    Genomic

    1. NC_004354.4 Reference assembly

      Range
      19485759..19492011 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001169325.2 → NP_001162796.1  pacman, isoform B [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_001162796.1

      Status: REVIEWED

      UniProtKB/TrEMBL
      E1JJR3, Q9XZU2
      Conserved Domains (2) summary
      COG5049
      Location:1 → 843
      XRN1; 5'-3' exonuclease [Replication, recombination and repair]
      pfam03159
      Location:1 → 225
      XRN_N; XRN 5'-3' exonuclease N-terminus

    2. NM_078684.4 → NP_523408.2  pacman, isoform A [Drosophila melanogaster]

      See identical proteins and their annotated locations for NP_523408.2

      Status: REVIEWED

      UniProtKB/TrEMBL
      Q9VWI1, Q9XZU2
      Related
      FBpp0074553
      Conserved Domains (2) summary
      COG5049
      Location:1 → 843
      XRN1; 5'-3' exonuclease [Replication, recombination and repair]
      pfam03159
      Location:1 → 225
      XRN_N; XRN 5'-3' exonuclease N-terminus
    Nucleotide Protein
    Heading Accession and Version
    Protein Accession Links
    GenPept Link UniProtKB Link
    E1JJR3 E1JJR3
    Q9VWI1 Q9VWI1
    Q9XZU2 Q9XZU2

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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